Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 260 of 333
Found at i:85799279 original size:50 final size:50
Alignment explanation
Indices: 85799208--85799522 Score: 286
Period size: 48 Copynumber: 6.6 Consensus size: 50
85799198 ACATCAAAGT
*
85799208 CGATGCCATGTCCCAGACATGGTCTTACACTTACTCTCATATATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGC
* * * *
85799258 CGATGCCATGTCCTAGGCATGGTCTTACACTGGCTCTCATCTATCG-GTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAG-GC
* *
85799308 CGATGCCATGTCCCAGACATGGTCTTACACTGA----CACATATC-AAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGC
* * * * * *
85799353 TGATGCCATGTCCTAGACATGGTCTTACACT-AGCTCT--TGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATCGAGGC
* * *
85799401 CGATGCCATGTCCCAGACATGGTCTTACACT-AGCT-TACATCT-T-AATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCT-CATATATCGAGGC
* * *
85799449 CGATACCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGC
* *
85799497 TGATG-TATGTCCCAGACAT-GTCTTAC
1 CGATGCCATGTCCCAGACATGGTCTTAC
85799523 TCTAGCACAC
Statistics
Matches: 222, Mismatches: 29, Indels: 32
0.78 0.10 0.11
Matches are distributed among these distances:
44 1 0.00
45 31 0.14
46 13 0.06
47 17 0.08
48 82 0.37
49 3 0.01
50 75 0.34
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGC
Found at i:85799516 original size:143 final size:144
Alignment explanation
Indices: 85799175--85799480 Score: 390
Period size: 143 Copynumber: 2.1 Consensus size: 144
85799165 CCATACCCCG
* *
85799175 GACATGGTCTTACACTGGCTCACACATCAAAG-TCGATGCCATGTCCCAGACATGGTCTTACACT
1 GACATGGTCTTACACT-G-ACACATATC-AAGCT-GATGCCATGTCCCAGACATGGTCTTACAC-
* * * *
85799239 TA-CTCTCATATATCGAGGCCGATGCCATGTCCTAGGCATGGTCTTACACTGGCTCTCATCTATC
61 TAGCTCT-ATATATCAAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTATC
** *
85799303 GGTGCCGATGCCATGTCCCA
125 AATGCCGATACCATGTCCCA
*
85799323 GACATGGTCTTACACTGACACATATCAAGCTGATGCCATGTCCTAGACATGGTCTTACACTAGCT
1 GACATGGTCTTACACTGACACATATCAAGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCT
* * *
85799388 CT-TGTCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-TACATCT-T-AATGC
66 CTATATATCAAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATCTATCAATGC
85799449 CGATACCATGTCCCA
130 CGATACCATGTCCCA
85799464 GACATGGTCTTACACTG
1 GACATGGTCTTACACTG
85799481 GCTCTCATAA
Statistics
Matches: 142, Mismatches: 13, Indels: 13
0.85 0.08 0.08
Matches are distributed among these distances:
141 34 0.24
142 2 0.01
143 44 0.31
144 2 0.01
145 35 0.25
146 8 0.06
147 1 0.01
148 16 0.11
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (144 bp):
GACATGGTCTTACACTGACACATATCAAGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCT
CTATATATCAAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTATCAATGCC
GATACCATGTCCCA
Found at i:85805591 original size:50 final size:49
Alignment explanation
Indices: 85805528--85805788 Score: 189
Period size: 50 Copynumber: 5.6 Consensus size: 49
85805518 ATATCAAAGT
* *
85805528 CGATGTCATGTCCCAGACATGGTCTTACACTTACTCTTATATACCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTTATATA-CGAGGC
* ** * * *
85805578 CGATGCCATGTCCCAAACATGGTCTTACACTGGTTCTCATTTATCG-GTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTTATATA-CGAG-GC
* *
85805628 CGATGCCATATCCCAGACATGGTCTT--AC--A--C--ATAT-C-AAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTTATATACGAGGC
* *
85805667 CGATGCCATGTCCCAGACATGGTCTTACACT-AGCT-TTCATCTTA--ATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTT-AT-ATACGAGGC
* * * * *
85805715 CGATGCCATGTCCCATATATGGTCTTACACTGGCTCTTATA-ATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTTATATACGAGGC
85805763 CGATG-CATGTCCCAGACAT-GTCTTAC
1 CGATGCCATGTCCCAGACATGGTCTTAC
85805789 TCTAGCACAC
Statistics
Matches: 168, Mismatches: 26, Indels: 38
0.72 0.11 0.16
Matches are distributed among these distances:
39 26 0.15
40 1 0.01
41 2 0.01
42 4 0.02
44 1 0.01
46 8 0.05
47 14 0.08
48 46 0.27
49 3 0.02
50 63 0.38
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.30
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTTATATACGAGGC
Found at i:85805765 original size:48 final size:48
Alignment explanation
Indices: 85805665--85805794 Score: 151
Period size: 48 Copynumber: 2.8 Consensus size: 48
85805655 CACATATCAA
**
85805665 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATCTTAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATAATAAT
* * * *
85805713 GCCGATGCCATGTCCCATATATGGTCTTACACTGGCTCTT-ATAAT-GT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-TTCATAATAAT
*
85805760 GGCCGATG-CATGTCCCAGACAT-GTCTTACTCTAGC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
85805795 ACACATATCA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
46 11 0.16
47 13 0.19
48 44 0.63
49 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATAATAAT
Found at i:85807049 original size:29 final size:29
Alignment explanation
Indices: 85807007--85807065 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
85806997 AATGTGTTAC
85807007 ATTCGAAAATGAATGTGGTTTTCTCACTA
1 ATTCGAAAATGAATGTGGTTTTCTCACTA
85807036 ATTCGAAAATGAATGTGGTTTTCTCACTA
1 ATTCGAAAATGAATGTGGTTTTCTCACTA
85807065 A
1 A
85807066 GTATGGAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (29 bp):
ATTCGAAAATGAATGTGGTTTTCTCACTA
Found at i:85807271 original size:16 final size:17
Alignment explanation
Indices: 85807243--85807274 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
85807233 TTAGAATTAG
85807243 ATTGAGAAAATTATTTA
1 ATTGAGAAAATTATTTA
85807260 ATTGAG-AAATTATTT
1 ATTGAGAAAATTATTT
85807275 TTTAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (17 bp):
ATTGAGAAAATTATTTA
Found at i:85808193 original size:45 final size:45
Alignment explanation
Indices: 85808142--85808239 Score: 171
Period size: 45 Copynumber: 2.2 Consensus size: 45
85808132 ATACTTAACT
* *
85808142 TTTAATTAAACTACTAATCACTAATTTAATGGTTATTGTTCTTCC
1 TTTAATTAAACTACTAATCACTAATATAATGGTTATTATTCTTCC
85808187 TTTAATTAAACTACTAATCACTAATATAATGGTTATTATTCTTCC
1 TTTAATTAAACTACTAATCACTAATATAATGGTTATTATTCTTCC
85808232 -TTAATTAA
1 TTTAATTAA
85808240 GCAAGTCGGA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 8 0.16
45 43 0.84
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.46
Consensus pattern (45 bp):
TTTAATTAAACTACTAATCACTAATATAATGGTTATTATTCTTCC
Found at i:85810208 original size:19 final size:20
Alignment explanation
Indices: 85810171--85810211 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
85810161 TTTTGTACGC
85810171 TTTTCCTTTTTCTGAATGAT
1 TTTTCCTTTTTCTGAATGAT
85810191 TTTTCCTGTTTT-TG-ATGAT
1 TTTTCCT-TTTTCTGAATGAT
85810210 TT
1 TT
85810212 GTTTGTATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 9 0.45
21 4 0.20
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.63
Consensus pattern (20 bp):
TTTTCCTTTTTCTGAATGAT
Found at i:85816524 original size:19 final size:19
Alignment explanation
Indices: 85816460--85816524 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
85816450 ACGCATACTA
*
85816460 GCACACGAAGCACATATTG
1 GCACACGAAGCGCATATTG
** * *
85816479 GCGTACAAAGCGCATATCG
1 GCACACGAAGCGCATATTG
* *
85816498 GCATACGAAGCGCATCTTG
1 GCACACGAAGCGCATATTG
85816517 GCACACGA
1 GCACACGA
85816525 GGTGCATCCT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.32, C:0.28, G:0.25, T:0.15
Consensus pattern (19 bp):
GCACACGAAGCGCATATTG
Found at i:85820389 original size:16 final size:16
Alignment explanation
Indices: 85820368--85820405 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
85820358 CTTGTAGAAG
85820368 ATTGATCCACCTTTCA
1 ATTGATCCACCTTTCA
85820384 ATTGATCCACCTTTCA
1 ATTGATCCACCTTTCA
85820400 ATTGAT
1 ATTGAT
85820406 TAAATAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.08, T:0.39
Consensus pattern (16 bp):
ATTGATCCACCTTTCA
Found at i:85821799 original size:68 final size:68
Alignment explanation
Indices: 85821683--85821817 Score: 180
Period size: 68 Copynumber: 2.0 Consensus size: 68
85821673 CCTATAAGAC
* * * * ** *
85821683 TGTAAGACCATGGTTAGGCTATGGCAACATATGAAGTCCGCCAGGACAGTAAACATGTCATCATA
1 TGTAAGACCATAGCTAGGCTATGGAAACATACGAAGTCCGAAAGGACAGTAAACATGGCATCATA
85821748 TAG
66 TAG
* * *
85821751 TGTAAGACCATAGCTAGGTTATGGAAACATACGAAGTCTGAAATGACAGTAAACATGGCATCATA
1 TGTAAGACCATAGCTAGGCTATGGAAACATACGAAGTCCGAAAGGACAGTAAACATGGCATCATA
85821816 TA
66 TA
85821818 TGATCGCGAG
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 57 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (68 bp):
TGTAAGACCATAGCTAGGCTATGGAAACATACGAAGTCCGAAAGGACAGTAAACATGGCATCATA
TAG
Found at i:85840130 original size:41 final size:41
Alignment explanation
Indices: 85840073--85840172 Score: 182
Period size: 41 Copynumber: 2.4 Consensus size: 41
85840063 TGTGGATACC
* *
85840073 TGACATCTTGTGTGAGCAGCACTGTGTAGCTACGTCCTAAT
1 TGACAGCTTGTGTGAGCACCACTGTGTAGCTACGTCCTAAT
85840114 TGACAGCTTGTGTGAGCACCACTGTGTAGCTACGTCCTAAT
1 TGACAGCTTGTGTGAGCACCACTGTGTAGCTACGTCCTAAT
85840155 TGACAGCTTGTGTGAGCA
1 TGACAGCTTGTGTGAGCA
85840173 AGCTCGTGAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (41 bp):
TGACAGCTTGTGTGAGCACCACTGTGTAGCTACGTCCTAAT
Found at i:85842098 original size:18 final size:18
Alignment explanation
Indices: 85842075--85842110 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
85842065 ATAAATATCC
85842075 TTATTTAATATGTACGAA
1 TTATTTAATATGTACGAA
85842093 TTATTTAATATGTACGAA
1 TTATTTAATATGTACGAA
85842111 CTCAGTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (18 bp):
TTATTTAATATGTACGAA
Found at i:85844114 original size:19 final size:19
Alignment explanation
Indices: 85844090--85844152 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
85844080 GTAACAACGG
85844090 AGTAAGCTTTCATAAGCTT
1 AGTAAGCTTTCATAAGCTT
* * *
85844109 AGTAAGTTTTAAGCAATGC-T
1 AGTAAGCTTTCA-TAA-GCTT
85844129 -GTAAGCTTTCATAAGCTT
1 AGTAAGCTTTCATAAGCTT
85844147 AGTAAG
1 AGTAAG
85844153 TTTTAAGCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
17 2 0.06
18 3 0.09
19 24 0.71
20 3 0.09
21 2 0.06
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
AGTAAGCTTTCATAAGCTT
Found at i:85844142 original size:38 final size:38
Alignment explanation
Indices: 85844091--85844165 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
85844081 TAACAACGGA
85844091 GTAAGCTTTCATAAGCTTAGTAAGTTTTAAGCAATGCT
1 GTAAGCTTTCATAAGCTTAGTAAGTTTTAAGCAATGCT
85844129 GTAAGCTTTCATAAGCTTAGTAAGTTTTAAGCAATGC
1 GTAAGCTTTCATAAGCTTAGTAAGTTTTAAGCAATGC
85844166 AAACAAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (38 bp):
GTAAGCTTTCATAAGCTTAGTAAGTTTTAAGCAATGCT
Found at i:85845009 original size:38 final size:38
Alignment explanation
Indices: 85844961--85845274 Score: 520
Period size: 38 Copynumber: 8.3 Consensus size: 38
85844951 GGCTCAAAGG
* * *
85844961 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
85844999 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
85845037 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
85845075 CCCAGATATAATACCAACACGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
85845113 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
85845151 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
85845189 CCCAGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
85845227 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
85845265 CCCGGATATA
1 CCCGGATATA
85845275 CATCAAATAT
Statistics
Matches: 256, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 256 1.00
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:85848322 original size:27 final size:27
Alignment explanation
Indices: 85848292--85848633 Score: 251
Period size: 27 Copynumber: 12.7 Consensus size: 27
85848282 CCCCCAGTTG
* * *
85848292 TAAAATTACCAAAGTACCCCCGGTTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * *
85848319 TAAAACTACCCAAATATCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * **
85848346 TAGAATTACCGATTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * ***
85848373 CAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* ***
85848400 TAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * ****
85848427 TAGAATTATCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* ***
85848454 TAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * * *
85848481 CAAAATTACTAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCTCGATTTA
*
85848508 CAAAATTACCAAAATACCCTCGA-TTA
1 TAAAATTACCAAAATACCCTCGATTTA
* *
85848534 GTAAAATTACCAAAATA-CCTCTGGTTTG
1 -TAAAATTACCAAAATACCCTC-GATTTA
* * *
85848562 TAAAATTACTAAAATA-CCTCTGGTTTG
1 TAAAATTACCAAAATACCCTC-GATTTA
* *
85848589 TAAAATTACCAAAATACCATTGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
*
85848616 TAAAA-TACCGAAATACCC
1 TAAAATTACCAAAATACCC
85848634 CTGTAGGGTA
Statistics
Matches: 269, Mismatches: 42, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
26 18 0.07
27 247 0.92
28 4 0.01
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.34
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCGATTTA
Found at i:85848667 original size:27 final size:27
Alignment explanation
Indices: 85848625--85848838 Score: 297
Period size: 27 Copynumber: 8.0 Consensus size: 27
85848615 ATAAAATACC
85848625 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
85848652 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
85848679 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
85848706 GAGATAACCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
*
85848733 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
85848760 GAAATACCCTTGTAGGGTAGAAATA-T
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
85848786 CGAAATGCCCCTGTAGGGTAGAATTACC
1 -GAAATACCCCTGTAGGGTAGAATTACT
* * *
85848814 GAGATACCCTTGT-GGGTAAAATTAC
1 GAAATACCCCTGTAGGGTAGAATTAC
85848839 CATTTTGCCC
Statistics
Matches: 165, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
26 11 0.07
27 154 0.93
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACT
Found at i:85849080 original size:25 final size:25
Alignment explanation
Indices: 85849042--85849111 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
85849032 AGGAAGTGCT
* *
85849042 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
85849067 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
85849092 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCTAGTT
85849112 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCA
Found at i:85849124 original size:24 final size:24
Alignment explanation
Indices: 85849067--85849138 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 24
85849057 TAGTTTACCG
*
85849067 AAAAG-GGCTTTGCCCTAGTTTATC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
85849091 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
85849115 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
85849139 ATGATAAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 19 0.47
25 21 0.52
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:85849383 original size:31 final size:30
Alignment explanation
Indices: 85849332--85849414 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 30
85849322 CGCTTACAGT
* *
85849332 AAAGACTTCGGCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCAGTGATATGATTTATAA
85849362 AAAGGCTTCGGCCTAGTGATATGATTTATAA
1 AAAGGCTTCGGCC-AGTGATATGATTTATAA
85849393 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGG-CCAGTGATATG
85849415 TCGAGACTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
30 17 0.35
31 30 0.61
32 2 0.04
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (30 bp):
AAAGGCTTCGGCCAGTGATATGATTTATAA
Found at i:85864764 original size:26 final size:26
Alignment explanation
Indices: 85864734--85864787 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
85864724 CAACCATTAA
85864734 TAGCCAACACTTTTGGCCAAATCAAT
1 TAGCCAACACTTTTGGCCAAATCAAT
*
85864760 TAGCCAATACTTTTGGCCAAATCAAT
1 TAGCCAACACTTTTGGCCAAATCAAT
85864786 TA
1 TA
85864788 TGACATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (26 bp):
TAGCCAACACTTTTGGCCAAATCAAT
Found at i:85866537 original size:5 final size:5
Alignment explanation
Indices: 85866518--85866565 Score: 53
Period size: 5 Copynumber: 9.0 Consensus size: 5
85866508 AACGACTTAA
85866518 AAAAT ATAAAGT AAAAT AAAAT -AAAT AAAAT AAAAAAT AAAAT AAAAT
1 AAAAT A-AAA-T AAAAT AAAAT AAAAT AAAAT --AAAAT AAAAT AAAAT
85866566 GTACTAAGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
4 4 0.11
5 21 0.55
6 6 0.16
7 7 0.18
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:85873975 original size:21 final size:21
Alignment explanation
Indices: 85873940--85873984 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
85873930 AAAATATCTA
*
85873940 AAATTTCTCCCTAAAGCTCTC
1 AAATTTCTCACTAAAGCTCTC
* **
85873961 AAATTTCTCATTAAATTTCTC
1 AAATTTCTCACTAAAGCTCTC
85873982 AAA
1 AAA
85873985 GCTCTTCATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (21 bp):
AAATTTCTCACTAAAGCTCTC
Found at i:85877313 original size:19 final size:19
Alignment explanation
Indices: 85877289--85877352 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
85877279 TGGTAACGGT
85877289 TTATTTTAAATTTTGAATA
1 TTATTTTAAATTTTGAATA
**
85877308 TTA-TTTAATATTTT-TTTCA
1 TTATTTTAA-ATTTTGAAT-A
85877327 TTTATTTTAAATTTTGAATA
1 -TTATTTTAAATTTTGAATA
85877347 TTATTT
1 TTATTT
85877353 AATATTTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
18 6 0.17
19 15 0.42
20 9 0.25
21 6 0.17
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (19 bp):
TTATTTTAAATTTTGAATA
Found at i:85877331 original size:39 final size:37
Alignment explanation
Indices: 85877288--85877368 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 37
85877278 ATGGTAACGG
85877288 TTTATTTTAAATTTTGAATATTATTTAATATTTTTTTCA
1 TTTATTTTAAATTTTGAATATTATTTAATA--TTTTTCA
85877327 TTTATTTTAAATTTTGAATATTATTTAATATTTTTCA
1 TTTATTTTAAATTTTGAATATTATTTAATATTTTTCA
85877364 TTTAT
1 TTTAT
85877369 GTAATTTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 12 0.29
39 30 0.71
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (37 bp):
TTTATTTTAAATTTTGAATATTATTTAATATTTTTCA
Found at i:85877359 original size:19 final size:18
Alignment explanation
Indices: 85877293--85877360 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 18
85877283 AACGGTTTAT
85877293 TTTAAATTTTGAATATTA
1 TTTAAATTTTGAATATTA
**
85877311 TTTAATATTTT-TTTCATTTA
1 TTTAA-ATTTTGAAT-A-TTA
85877331 TTTTAAATTTTGAATATTA
1 -TTTAAATTTTGAATATTA
85877350 TTTAATATTTT
1 TTTAA-ATTTT
85877361 TCATTTATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
18 11 0.28
19 14 0.35
20 9 0.22
21 6 0.15
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTAAATTTTGAATATTA
Found at i:85877368 original size:18 final size:18
Alignment explanation
Indices: 85877308--85877373 Score: 62
Period size: 18 Copynumber: 3.5 Consensus size: 18
85877298 ATTTTGAATA
85877308 TTATTTAATATTTTTTTCAT
1 TTATTTAATA--TTTTTCAT
**
85877328 TTATTTTAA-ATTTTGAAT
1 TTA-TTTAATATTTTTCAT
85877346 ATTATTTAATATTTTTCAT
1 -TTATTTAATATTTTTCAT
*
85877365 TTATGTAAT
1 TTATTTAAT
85877374 TTTAATTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
18 19 0.50
19 10 0.26
20 4 0.11
21 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (18 bp):
TTATTTAATATTTTTCAT
Found at i:85878441 original size:30 final size:30
Alignment explanation
Indices: 85878379--85878442 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
85878369 ACGGCACGAT
* **
85878379 CCCATCAATAGCGCCCACACAATCAATGGG
1 CCCATCAACAGCGCCCACACAATCAACAGG
* *
85878409 CCCATCAACAGCGCCCACATAATCACCAGG
1 CCCATCAACAGCGCCCACACAATCAACAGG
85878439 CCCA
1 CCCA
85878443 ATGCCTCAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.42, G:0.14, T:0.11
Consensus pattern (30 bp):
CCCATCAACAGCGCCCACACAATCAACAGG
Found at i:85882003 original size:125 final size:126
Alignment explanation
Indices: 85881780--85882031 Score: 398
Period size: 125 Copynumber: 2.0 Consensus size: 126
85881770 GGTCAATCAT
* *
85881780 GAACTATTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAAAAATTTTGCTAACATTACATC
1 GAACTATTGTAGAAAAAGAGCGTCCACATGAGAGCTTTTTTCAAAAATTTTGCTAACAGTACATC
*
85881845 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAACATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
*** * * *
85881906 GAACTATTGTAGAAAAAGAGCGTCCACATGAGAGC-TTTTTCTGTATTTTTGCTGACAGTGCATC
1 GAACTATTGTAGAAAAAGAGCGTCCACATGAGAGCTTTTTTCAAAAATTTTGCTAACAGTACATC
* *
85881970 CTGCTTGAAACGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAACATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
85882031 G
1 G
85882032 GTACAAATAG
Statistics
Matches: 115, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
125 81 0.70
126 34 0.30
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.37
Consensus pattern (126 bp):
GAACTATTGTAGAAAAAGAGCGTCCACATGAGAGCTTTTTTCAAAAATTTTGCTAACAGTACATC
CTGCTTGAAACATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
Found at i:85882144 original size:35 final size:32
Alignment explanation
Indices: 85882085--85882208 Score: 105
Period size: 30 Copynumber: 3.8 Consensus size: 32
85882075 TTTAAAAAAA
* *
85882085 TAAACCCTAATTTAATTAAATTAAACTTTAAACC
1 TAAACCCTAATTTAATTTATTTAAAC--TAAACC
*
85882119 TTAAACCCTAATTTAATTTATTT-AA--AACCC
1 -TAAACCCTAATTTAATTTATTTAAACTAAACC
85882149 TAAAACCCTAATCTACTTAATTTATTTAAA--AAACC
1 T-AAACCCTAA--T--TTAATTTATTTAAACTAAACC
*
85882184 TAAACCATAATTTAATTTATTTAAA
1 TAAACCCTAATTTAATTTATTTAAA
85882209 ATCCTAAAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
29 1 0.01
30 27 0.35
32 2 0.03
34 21 0.27
35 27 0.35
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (32 bp):
TAAACCCTAATTTAATTTATTTAAACTAAACC
Found at i:85882155 original size:65 final size:64
Alignment explanation
Indices: 85882086--85882286 Score: 194
Period size: 65 Copynumber: 3.0 Consensus size: 64
85882076 TTAAAAAAAT
*
85882086 AAACCCTAATTTAATTAAATTAAACTTT-AAACCTTAAACCCTAATTTAATTTATTTAAAACCCT
1 AAACCCTAATTTAATTAAATT-AA-TTTAAAACC-TAAACCATAATTTAATTTATTTAAAACCCT
85882150 -A
63 AA
* * * *
85882151 AAACCCTAATCTACTT-AATTTATTTAAAAAACCTAAACCATAATTTAATTTATTTAAAATCCTA
1 AAACCCTAATTTAATTAAATTAATTT--AAAACCTAAACCATAATTTAATTTATTTAAAACCCTA
85882215 A
64 A
* * *
85882216 AAACCCTAATTT-ATTTAATTTATTTAAAACCCTAAAACCTTAATTTACTTAATTTATTTAAAAA
1 AAACCCTAATTTAATTAAATTAATTTAAAA-CCT-AAACCATAA--T--TTAATTTATTT-AAAA
85882280 CCCTAA
59 CCCTAA
85882286 A
1 A
85882287 CTCTAATTTG
Statistics
Matches: 115, Mismatches: 9, Indels: 19
0.80 0.06 0.13
Matches are distributed among these distances:
62 3 0.03
63 5 0.04
64 37 0.32
65 48 0.42
67 1 0.01
69 11 0.10
70 10 0.09
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (64 bp):
AAACCCTAATTTAATTAAATTAATTTAAAACCTAAACCATAATTTAATTTATTTAAAACCCTAA
Found at i:85882174 original size:34 final size:34
Alignment explanation
Indices: 85882131--85882295 Score: 198
Period size: 34 Copynumber: 4.9 Consensus size: 34
85882121 AAACCCTAAT
*
85882131 TTAATTTATTTAAAACCCTAAAACCCTAATCTAC
1 TTAATTTATTTAAAACCCTAAAACCCTAATTTAC
* *
85882165 TTAATTTATTTAAAAAACCT-AAACCATAA--T--
1 TTAATTTATTT-AAAACCCTAAAACCCTAATTTAC
* *
85882195 TTAATTTATTTAAAATCCTAAAAACCCTAATTTAT
1 TTAATTTATTTAAAACCCT-AAAACCCTAATTTAC
*
85882230 TTAATTTATTTAAAACCCTAAAACCTTAATTTAC
1 TTAATTTATTTAAAACCCTAAAACCCTAATTTAC
*
85882264 TTAATTTATTTAAAAACCCT-AAACTCTAATTT
1 TTAATTTATTT-AAAACCCTAAAACCCTAATTT
85882296 GAATAATATT
Statistics
Matches: 114, Mismatches: 9, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
29 7 0.06
30 11 0.10
31 8 0.07
32 1 0.01
33 1 0.01
34 53 0.46
35 33 0.29
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (34 bp):
TTAATTTATTTAAAACCCTAAAACCCTAATTTAC
Found at i:85883099 original size:22 final size:22
Alignment explanation
Indices: 85883074--85883116 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
85883064 TGAAGAATTA
*
85883074 TTTATAATTTTTTAATTATTTT
1 TTTATAATTTTTAAATTATTTT
85883096 TTTATAATTTTTAAATTATTT
1 TTTATAATTTTTAAATTATTT
85883117 ATTGATATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTATAATTTTTAAATTATTTT
Found at i:85895118 original size:23 final size:23
Alignment explanation
Indices: 85895069--85895140 Score: 83
Period size: 23 Copynumber: 3.0 Consensus size: 23
85895059 AAAACTATAA
*
85895069 AAAAATATTTAAAAACCCTAAACCCT
1 AAAAATA-TTAAAAA-CCTTAA-CCT
*
85895095 AATAATATT-AAAACCTTAGACCT
1 AAAAATATTAAAAACCTTA-ACCT
85895118 AAAAATATTAAAAACCTTAACCT
1 AAAAATATTAAAAACCTTAACCT
85895141 TAGGAGAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 19 0.46
24 14 0.34
25 2 0.05
26 6 0.15
ACGTcount: A:0.53, C:0.19, G:0.01, T:0.26
Consensus pattern (23 bp):
AAAAATATTAAAAACCTTAACCT
Found at i:85896804 original size:14 final size:14
Alignment explanation
Indices: 85896787--85896813 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
85896777 AATAATTCTT
85896787 AAATAAATTTTAAA
1 AAATAAATTTTAAA
85896801 AAATAAATTTTAA
1 AAATAAATTTTAA
85896814 CATAATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTTTAAA
Found at i:85899583 original size:16 final size:16
Alignment explanation
Indices: 85899564--85899594 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85899554 CTTCTTCACT
85899564 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
85899580 TACTTACTTACTTAA
1 TACTCACTTACTTAA
85899595 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:85899600 original size:20 final size:20
Alignment explanation
Indices: 85899561--85899600 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
85899551 AAACTTCTTC
* *
85899561 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
85899581 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
85899601 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:85899976 original size:55 final size:53
Alignment explanation
Indices: 85899786--85900032 Score: 229
Period size: 55 Copynumber: 4.7 Consensus size: 53
85899776 ACACGGGTAC
* * * * *
85899786 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
85899835 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
85899888 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* *** *
85899943 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCATTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
85899996 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATG
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATG
85900033 TTATTCTTAA
Statistics
Matches: 167, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
49 38 0.23
50 1 0.01
52 2 0.01
53 49 0.29
54 10 0.06
55 66 0.40
56 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:85899977 original size:108 final size:110
Alignment explanation
Indices: 85899833--85900032 Score: 316
Period size: 108 Copynumber: 1.8 Consensus size: 110
85899823 ATCCTTTTGA
* * *
85899833 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCATTGCCTTA-GAAACCTCACCAA
85899896 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
85899941 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCATTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCATTGCCTTAGAAACCTCACCAAT
85900006 TGCCATGCCTTGGCATGGTCTTACATG
66 TGCCATGCCTTGGCATGGTCTTACATG
85900033 TTATTCTTAA
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.58
109 7 0.08
110 27 0.33
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCATTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:85902028 original size:9 final size:9
Alignment explanation
Indices: 85902014--85902047 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
85902004 TTAGGTTTCC
85902014 CTGAATTAA
1 CTGAATTAA
85902023 CTGAATTAA
1 CTGAATTAA
*
85902032 CTAAATTAA
1 CTGAATTAA
85902041 CTGAATT
1 CTGAATT
85902048 GAAAATGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (9 bp):
CTGAATTAA
Found at i:85906209 original size:9 final size:9
Alignment explanation
Indices: 85906195--85906236 Score: 75
Period size: 9 Copynumber: 4.7 Consensus size: 9
85906185 ATTCAATACT
85906195 TTAATTTGG
1 TTAATTTGG
85906204 TTAATTTGG
1 TTAATTTGG
85906213 TTAATTTGG
1 TTAATTTGG
*
85906222 TTAATTTAG
1 TTAATTTGG
85906231 TTAATT
1 TTAATT
85906237 CAGTTAGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (9 bp):
TTAATTTGG
Found at i:85906242 original size:18 final size:18
Alignment explanation
Indices: 85906203--85906247 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
85906193 CTTTAATTTG
* **
85906203 GTTAATTTGGTTAATTTG
1 GTTAATTTAGTTAATTCA
85906221 GTTAATTTAGTTAATTCA
1 GTTAATTTAGTTAATTCA
*
85906239 GTTAGTTTA
1 GTTAATTTA
85906248 TTTTATGTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.18, T:0.53
Consensus pattern (18 bp):
GTTAATTTAGTTAATTCA
Found at i:85908673 original size:21 final size:21
Alignment explanation
Indices: 85908629--85908673 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
85908619 AGAAGTCCGG
* *
85908629 GTTGTATCGGTAGAACCCAGA
1 GTTGTATCAGTAGAACCCACA
85908650 GTTGTATCAGTAGAACTCC-CA
1 GTTGTATCAGTAGAAC-CCACA
85908671 GTT
1 GTT
85908674 CTACTAGTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (21 bp):
GTTGTATCAGTAGAACCCACA
Found at i:85914222 original size:50 final size:50
Alignment explanation
Indices: 85914155--85914487 Score: 428
Period size: 50 Copynumber: 6.8 Consensus size: 50
85914145 GGGAGATATA
* * * *
85914155 AGAGCTAGTGCAAGACCATGTCTAGGACATGGCATTGGCCTTGAGATACG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATACG
* *
85914205 AGAGCTAATGTAAGACCATGTCTGGGACATGGCATC-GTCTCGAGATACG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATACG
85914254 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATACG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATACG
* * * *
85914304 AGAGCTAGTGTAAGACCATGTCTGAGACATGACATCAGCCTCGAGATATG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATACG
* * *
85914354 AGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGG-CT--TGATATG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATACG
* * * * * *
85914401 TG-TC-AGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-CGATAGATG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATACG
*
85914449 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
85914488 ACGACCATGT
Statistics
Matches: 249, Mismatches: 27, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
45 30 0.12
46 1 0.00
47 8 0.03
48 5 0.02
49 49 0.20
50 156 0.63
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATACG
Found at i:85914318 original size:99 final size:98
Alignment explanation
Indices: 85914147--85914487 Score: 449
Period size: 99 Copynumber: 3.5 Consensus size: 98
85914137 TGATGCTAGG
* * *
85914147 GAGATATAAGAGCTAGTGCAAGACCATGTCTAGGACATGGCATTGGCCTTGAGATACGAGAGCTA
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCC-TGAGATACGAGAGCTA
*
85914212 ATGTAAGACCATGTCTGGGACATGGCATC-GTCTC
65 GTGTAAGACCATGTCTGGGACATGGCATCAG-CTC
* *
85914246 GAGATACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATACGAGAGCTA
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCT-GAGATACGAGAGCTA
* *
85914311 GTGTAAGACCATGTCTGAGACATGACATCAGCCTC
65 GTGTAAGACCATGTCTGGGACATGGCATCAG-CTC
* * * *
85914346 GAGATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGG-CT-TGATATGTG-TC-AG
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTGAGATACGAGAGCTAG
*
85914407 TGTAAGACCATGTCTGGGACATGGCATCAGCACC
66 TGTAAGACCATGTCTGGGACATGGCATCAGC-TC
* * * *
85914441 GATAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGC
85914488 ACGACCATGT
Statistics
Matches: 216, Mismatches: 22, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
94 1 0.00
95 73 0.34
96 1 0.00
97 6 0.03
98 1 0.00
99 86 0.40
100 48 0.22
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (98 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTGAGATACGAGAGCTAG
TGTAAGACCATGTCTGGGACATGGCATCAGCTC
Found at i:85914357 original size:149 final size:145
Alignment explanation
Indices: 85914155--85914484 Score: 421
Period size: 149 Copynumber: 2.2 Consensus size: 145
85914145 GGGAGATATA
* ** *
85914155 AGAGCTAGTGCAAGACCATGTCT-AGGACATGGCATTGGCCTTGAGATACGAGAGCTAATGTAAG
1 AGAGCTAGTGTAAGACCATGTCTGA-GACATGGCATCAGCCTCGAGATACGAGAGCTAATGTAAG
* *
85914219 ACCATGTCTGGGACATGGCATCGTCTCGAGATACGAGAGCTAGTGTAAGACCATGTCTGGGACAT
65 ACCATGTCTAGGACATGGCATCGGCT--AGATACGAG-GC-AGTGTAAGACCATGTCTGGGACAT
* *
85914284 GGCATCGGC-CTCGAGATACG
126 GGCATCAGCAC-CGAGAGACG
* * *
85914304 AGAGCTAGTGTAAGACCATGTCTGAGACATGACATCAGCCTCGAGATATGAGAGCTAGTGTAAGA
1 AGAGCTAGTGTAAGACCATGTCTGAGACATGGCATCAGCCTCGAGATACGAGAGCTAATGTAAGA
* * * *
85914369 CCATGTCTAGGACATGGCATCGGCTTGATATGTGTCAGTGTAAGACCATGTCTGGGACATGGCAT
66 CCATGTCTAGGACATGGCATCGGCTAGATACGAGGCAGTGTAAGACCATGTCTGGGACATGGCAT
* *
85914434 CAGCACCGATAGATG
131 CAGCACCGAGAGACG
* *
85914449 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 AGAGCTAGTGTAAGACCATGTCTGAGACATGGCATC
85914485 GGCACGACCA
Statistics
Matches: 159, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
145 71 0.45
146 2 0.01
147 6 0.04
149 79 0.50
150 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (145 bp):
AGAGCTAGTGTAAGACCATGTCTGAGACATGGCATCAGCCTCGAGATACGAGAGCTAATGTAAGA
CCATGTCTAGGACATGGCATCGGCTAGATACGAGGCAGTGTAAGACCATGTCTGGGACATGGCAT
CAGCACCGAGAGACG
Found at i:85914502 original size:28 final size:28
Alignment explanation
Indices: 85914462--85914517 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
85914452 GCCAGTGTAA
85914462 GACCATGTCTGGGACATGGCATCGGCAC
1 GACCATGTCTGGGACATGGCATCGGCAC
85914490 GACCATGTCTGGGACATGGCATCGGCAC
1 GACCATGTCTGGGACATGGCATCGGCAC
85914518 CGATAGATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.29, G:0.32, T:0.18
Consensus pattern (28 bp):
GACCATGTCTGGGACATGGCATCGGCAC
Found at i:85914545 original size:78 final size:78
Alignment explanation
Indices: 85914412--85914563 Score: 277
Period size: 78 Copynumber: 1.9 Consensus size: 78
85914402 GTCAGTGTAA
* *
85914412 GACCATGTCTGGGACATGGCATCAGCACCGATAGATGAGAGCCAGTGTAAGACCATGTCTGGGAC
1 GACCATGTCTGGGACATGGCATCAGCACCGATAGATGAGAGCCAGTGTAAAACCATGTCTAGGAC
85914477 ATGGCATCGGCAC
66 ATGGCATCGGCAC
*
85914490 GACCATGTCTGGGACATGGCATCGGCACCGATAGATGAGAGCCAGTGTAAAACCATGTCTAGGAC
1 GACCATGTCTGGGACATGGCATCAGCACCGATAGATGAGAGCCAGTGTAAAACCATGTCTAGGAC
85914555 ATGGCATCG
66 ATGGCATCG
85914564 ACTTTGATAT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.28, C:0.24, G:0.30, T:0.18
Consensus pattern (78 bp):
GACCATGTCTGGGACATGGCATCAGCACCGATAGATGAGAGCCAGTGTAAAACCATGTCTAGGAC
ATGGCATCGGCAC
Found at i:85914603 original size:48 final size:49
Alignment explanation
Indices: 85914490--85914616 Score: 148
Period size: 48 Copynumber: 2.6 Consensus size: 49
85914480 GCATCGGCAC
*
85914490 GACCATGTCTGGGACATGGCATCGGCACCGATAGATGAGAGCCAGTGTAA
1 GACCATGTCTGGGACATGGCATCGACACCGATA-ATGAGAGCCAGTGTAA
* * *** * *
85914540 AACCATGTCTAGGACATGGCATCGACTTTGAT-ATGTGAGCTAGTGTAA
1 GACCATGTCTGGGACATGGCATCGACACCGATAATGAGAGCCAGTGTAA
* *
85914588 GACCATGTCCGGGACATGGCATCGGCACC
1 GACCATGTCTGGGACATGGCATCGACACC
85914617 TTACCCTATG
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
48 36 0.58
50 26 0.42
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (49 bp):
GACCATGTCTGGGACATGGCATCGACACCGATAATGAGAGCCAGTGTAA
Found at i:85928865 original size:16 final size:16
Alignment explanation
Indices: 85928838--85928876 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
85928828 CTTCCCTTTT
*
85928838 TAAAATAAAATAAA-A
1 TAAAAAAAAATAAATA
85928853 TAACAAAAAAATAAATA
1 TAA-AAAAAAATAAATA
85928870 TAAAAAA
1 TAAAAAA
85928877 TACTTATAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 14 0.67
17 4 0.19
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (16 bp):
TAAAAAAAAATAAATA
Found at i:85930636 original size:21 final size:20
Alignment explanation
Indices: 85930608--85930648 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
85930598 GTCAATCACT
85930608 AAAAGTTCAT-ACAAACAGAC
1 AAAAGTTC-TGACAAACAGAC
85930628 AAAATGTTCTGACAAACAGAC
1 AAAA-GTTCTGACAAACAGAC
85930649 GTATATTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.51, C:0.20, G:0.12, T:0.17
Consensus pattern (20 bp):
AAAAGTTCTGACAAACAGAC
Found at i:85932591 original size:28 final size:27
Alignment explanation
Indices: 85932550--85932640 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 27
85932540 GTATCTAGCT
* * *
85932550 CATTAAGCCCAATCATATTCATATGGCC
1 CATTAGGCCAAATCACATT-ATATGGCC
*
85932578 CATTAGGCCAAATCACCTGTATATGGCC
1 CATTAGGCCAAATCACAT-TATATGGCC
*
85932606 TATTAGGCCCAAATCACATTTATATGGCC
1 CATTAGG-CCAAATCACA-TTATATGGCC
*
85932635 CGTTAG
1 CATTAG
85932641 ACCCAGCACA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 28 0.54
29 23 0.44
30 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (27 bp):
CATTAGGCCAAATCACATTATATGGCC
Found at i:85932629 original size:29 final size:29
Alignment explanation
Indices: 85932550--85932645 Score: 106
Period size: 29 Copynumber: 3.4 Consensus size: 29
85932540 GTATCTAGCT
* * *
85932550 CATTAAGCCC-AATCATATTCATATGGCC
1 CATTAGGCCCAAATCACATTTATATGGCC
* *
85932578 CATTAGG-CCAAATCACCTGTATATGGCC
1 CATTAGGCCCAAATCACATTTATATGGCC
*
85932606 TATTAGGCCCAAATCACATTTATATGGCC
1 CATTAGGCCCAAATCACATTTATATGGCC
* *
85932635 CGTTAGACCCA
1 CATTAGGCCCA
85932646 GCACATTCAT
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
27 2 0.04
28 26 0.47
29 27 0.49
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (29 bp):
CATTAGGCCCAAATCACATTTATATGGCC
Found at i:85936622 original size:9 final size:9
Alignment explanation
Indices: 85936610--85936666 Score: 62
Period size: 9 Copynumber: 6.3 Consensus size: 9
85936600 AAAAATTGTA
85936610 AGAATTGAG
1 AGAATTGAG
*
85936619 AGAAGTGAG
1 AGAATTGAG
*
85936628 AGAGTTGAG
1 AGAATTGAG
85936637 AGAATTGAG
1 AGAATTGAG
*
85936646 AG-TTTAGAG
1 AGAATT-GAG
*
85936655 AGAATAGAG
1 AGAATTGAG
85936664 AGA
1 AGA
85936667 GTTAGATTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
8 2 0.05
9 36 0.92
10 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.37, T:0.19
Consensus pattern (9 bp):
AGAATTGAG
Found at i:85943501 original size:43 final size:43
Alignment explanation
Indices: 85943440--85943532 Score: 177
Period size: 43 Copynumber: 2.2 Consensus size: 43
85943430 AATAAAAATG
85943440 AGTTTTTCAACATAATATGAAACTAACGATTCACAGTCAATAT
1 AGTTTTTCAACATAATATGAAACTAACGATTCACAGTCAATAT
85943483 AGTTTTTCAACATAATATGAAACTAACGATTCACAGTCAATAT
1 AGTTTTTCAACATAATATGAAACTAACGATTCACAGTCAATAT
*
85943526 ACTTTTT
1 AGTTTTT
85943533 TGATATCTTG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (43 bp):
AGTTTTTCAACATAATATGAAACTAACGATTCACAGTCAATAT
Found at i:85949234 original size:38 final size:38
Alignment explanation
Indices: 85949174--85949251 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
85949164 GGTCATTTGG
*
85949174 TGGAAAATTGAGAGTGAGTGATAGGTTTGAGTTATGTA
1 TGGAAAATTGAGAGTGAATGATAGGTTTGAGTTATGTA
*
85949212 TGGATAATTGAGAGTGAATGATAGGTTTGAGTTATGTA
1 TGGAAAATTGAGAGTGAATGATAGGTTTGAGTTATGTA
85949250 TG
1 TG
85949252 TACTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.36
Consensus pattern (38 bp):
TGGAAAATTGAGAGTGAATGATAGGTTTGAGTTATGTA
Found at i:85952916 original size:19 final size:20
Alignment explanation
Indices: 85952887--85952924 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
85952877 CAATGATTCA
*
85952887 ATGGACATGAAACTCTTGAC
1 ATGGACATGAAAATCTTGAC
85952907 ATGG-CATGAAAATCTTGA
1 ATGGACATGAAAATCTTGA
85952925 GATGATATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (20 bp):
ATGGACATGAAAATCTTGAC
Found at i:85952934 original size:19 final size:19
Alignment explanation
Indices: 85952890--85952934 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
85952880 TGATTCAATG
*
85952890 GACATGAAACTCTTGACAT
1 GACATGAAAATCTTGACAT
* *
85952909 GGCATGAAAATCTTGAGAT
1 GACATGAAAATCTTGACAT
*
85952928 GATATGA
1 GACATGA
85952935 TAATGACTTG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (19 bp):
GACATGAAAATCTTGACAT
Found at i:85962463 original size:20 final size:20
Alignment explanation
Indices: 85962440--85962484 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
85962430 AGGGACTAAA
*
85962440 ATGAAAATTTATAAAATTTG
1 ATGAAAAATTATAAAATTTG
* *
85962460 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTATAAAATTTG
85962480 ATGAA
1 ATGAA
85962485 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (20 bp):
ATGAAAAATTATAAAATTTG
Found at i:85963342 original size:19 final size:19
Alignment explanation
Indices: 85963318--85963359 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
85963308 TTCAACGGAT
*
85963318 ATGAAATTCTTGACATGAC
1 ATGAAAATCTTGACATGAC
* *
85963337 ATGAAAATCTTGAGATGAT
1 ATGAAAATCTTGACATGAC
85963356 ATGA
1 ATGA
85963360 TAATGATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (19 bp):
ATGAAAATCTTGACATGAC
Found at i:85965670 original size:20 final size:18
Alignment explanation
Indices: 85965645--85965683 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
85965635 GAAGTTTATA
*
85965645 AAATAAGTTGTAAATGTGTG
1 AAATAA-TTGAAAAT-TGTG
85965665 AAATAATTGAAAATTGTG
1 AAATAATTGAAAATTGTG
85965683 A
1 A
85965684 GGTTCTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.33
Consensus pattern (18 bp):
AAATAATTGAAAATTGTG
Found at i:85966219 original size:48 final size:48
Alignment explanation
Indices: 85966148--85966325 Score: 191
Period size: 48 Copynumber: 3.7 Consensus size: 48
85966138 TATGTGTGCT
* *
85966148 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCC
* * * * * *
85966196 AGTGTAAGATCATGCCTAGGACATGGCAT-TG--ACATTGATATGTGTGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACA-T--TATGAGAGCC
* ** *
85966244 AGTGTAAGACCATGTTTAGGACATGTTATTGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCC
*
85966292 AGTGTAAGACCATGTCTGGGACATGGCATCGGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCC
85966326 CGTGTAACTC
Statistics
Matches: 102, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
45 3 0.03
46 1 0.01
47 1 0.01
48 92 0.90
49 1 0.01
50 1 0.01
51 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:85966299 original size:96 final size:96
Alignment explanation
Indices: 85966135--85966320 Score: 309
Period size: 96 Copynumber: 1.9 Consensus size: 96
85966125 GACAATTGGG
*
85966135 TGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTTTAGGACATGGCATCGGCCACATTATGAGAGCCAGTG
*
85966200 TAAGATCATGCCTAGGACATGGCATTGACAT
66 TAAGACCATGCCTAGGACATGGCATTGACAT
** *
85966231 TGATATGTGTGCTAGTGTAAGACCATGTTTAGGACATGTTATTGGCCACATTATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTTTAGGACATGGCATCGGCCACATTATGAGAGCCAGTG
* *
85966296 TAAGACCATGTCTGGGACATGGCAT
66 TAAGACCATGCCTAGGACATGGCAT
85966321 CGGCCCGTGT
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 83 1.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (96 bp):
TGATATGTGTGCTAGTGTAAGACCATGTTTAGGACATGGCATCGGCCACATTATGAGAGCCAGTG
TAAGACCATGCCTAGGACATGGCATTGACAT
Found at i:85969099 original size:17 final size:18
Alignment explanation
Indices: 85969066--85969100 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
85969056 TAACTTAGCT
*
85969066 AGAATTTGAATAATAGAA
1 AGAATATGAATAATAGAA
85969084 AGAATATGAA-AATAGAA
1 AGAATATGAATAATAGAA
85969101 TGTTATCGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (18 bp):
AGAATATGAATAATAGAA
Found at i:85972805 original size:27 final size:27
Alignment explanation
Indices: 85972775--85972952 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
85972765 ATATTGAGCC
* *
85972775 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
85972802 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
85972829 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
85972857 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
85972884 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
85972911 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
85972938 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
85972953 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:85972914 original size:82 final size:81
Alignment explanation
Indices: 85972796--85972951 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
85972786 TGCTATATAA
* * *
85972796 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
85972861 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
85972878 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
85972942 CACTTAGTGC
65 CACTTAGTGC
85972952 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:85988194 original size:27 final size:27
Alignment explanation
Indices: 85988131--85988184 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
85988121 TGTCAAGTGA
**
85988131 AATTGAATGGCAAATTATCATTACATG
1 AATTGAATGTTAAATTATCATTACATG
85988158 AATTGAATGTTAAATTA-CTATTACATG
1 AATTGAATGTTAAATTATC-ATTACATG
85988185 GGTTGTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (27 bp):
AATTGAATGTTAAATTATCATTACATG
Found at i:85999923 original size:50 final size:49
Alignment explanation
Indices: 85999799--85999974 Score: 185
Period size: 50 Copynumber: 3.5 Consensus size: 49
85999789 TGAGGTCGCA
* * * * *
85999799 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
* **
85999850 TGTGGAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * * *
85999900 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
85999949 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
85999975 TGCATACCAG
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 30 0.29
50 40 0.38
51 30 0.29
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:85999983 original size:49 final size:49
Alignment explanation
Indices: 85999792--85999985 Score: 180
Period size: 49 Copynumber: 3.9 Consensus size: 49
85999782 TTTATTGTGA
* *
85999792 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-T
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CC--AGACTGTT
* * ** *
85999843 GAT--CATGTGTGGAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGA
1 GGTCGCATGTGT--AGTACTAAGTGCAGGCTACTACGCGTACCAGACT-GT-T
* * * *
85999893 GGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGACTGTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
* *
85999942 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
85999986 TAGTTTCGGC
Statistics
Matches: 116, Mismatches: 19, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
49 45 0.39
50 33 0.28
51 28 0.24
52 6 0.05
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (49 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
Found at i:86006929 original size:14 final size:13
Alignment explanation
Indices: 86006910--86006957 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
86006900 GCTCAATCAA
*
86006910 TTTTTTTCCTTTC
1 TTTTTTTTCTTTC
86006923 TTTTTTTTTCTTTC
1 -TTTTTTTTCTTTC
*
86006937 TTGTTCTTTC-TTC
1 TT-TTTTTTCTTTC
86006950 TTTTTTTT
1 TTTTTTTT
86006958 AGAACAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 5 0.17
13 7 0.23
14 18 0.60
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (13 bp):
TTTTTTTTCTTTC
Found at i:86009539 original size:21 final size:21
Alignment explanation
Indices: 86009526--86009566 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
86009516 TAATAATGAG
86009526 AATAACAACACTAATAAAAAC
1 AATAACAACACTAATAAAAAC
*
86009547 AGTAACAACACTAATAAAAA
1 AATAACAACACTAATAAAAA
86009567 AAGTTAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.66, C:0.17, G:0.02, T:0.15
Consensus pattern (21 bp):
AATAACAACACTAATAAAAAC
Found at i:86012573 original size:213 final size:213
Alignment explanation
Indices: 86012201--86012629 Score: 655
Period size: 213 Copynumber: 2.0 Consensus size: 213
86012191 TAGTTATTGC
* * * *
86012201 TATAGGGGTTATTTTGAGGTCTAGAATTATTATCCATAAAGTTGACTTGTTCATACTCCATGTTA
1 TATAAGGGTTATTTTGAGATCTAGAATTATTACCCATAAAGTTGACTTGCTCATACTCCATGTTA
* * * *
86012266 GAACTGAAGGGTAAACCTTCGGGATTGATCATCCCCGCTCCAGTTGCGTCACATTGCATTATTGG
66 GAACTGAAGGGAAAACATTCGGGATTGATCATCCCCGCTCCAGTTGCATCACATTGCATTACTGG
* * * *
86012331 ATTCATCGTATTATTGCAACTCAAACCATCAATTTTTTTCTTTAGTACCTT-TACCTGACTTGCC
131 ATTCATCGTATTATTGCAACTCAAACCATCAATTTTTTTATTCAAT-CCTTCTACCTGACATGCC
86012395 AACATAACAACTGCATCCA
195 AACATAACAACTGCATCCA
* *
86012414 TATAAGGGTTATTTTGCGATCTAGAATTATTACCCATAAAGTTGACTTGCTCATGCTCCATGTTA
1 TATAAGGGTTATTTTGAGATCTAGAATTATTACCCATAAAGTTGACTTGCTCATACTCCATGTTA
* * *
86012479 GAA-TCGAAGGGAAAACATTCTGGATTGATCATCCCTGGTCCAGTTGCATCACATTGCATTACTG
66 GAACT-GAAGGGAAAACATTCGGGATTGATCATCCCCGCTCCAGTTGCATCACATTGCATTACTG
*
86012543 GATTCATCGTATTATTGCAACTCAAACCATCAATTTTTTTATTCAATGCTTCTACCTGACATGCC
130 GATTCATCGTATTATTGCAACTCAAACCATCAATTTTTTTATTCAATCCTTCTACCTGACATGCC
*
86012608 AACATAGCAACTGCATCCA
195 AACATAACAACTGCATCCA
86012627 TAT
1 TAT
86012630 TAAAAACACC
Statistics
Matches: 195, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
212 4 0.02
213 191 0.98
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (213 bp):
TATAAGGGTTATTTTGAGATCTAGAATTATTACCCATAAAGTTGACTTGCTCATACTCCATGTTA
GAACTGAAGGGAAAACATTCGGGATTGATCATCCCCGCTCCAGTTGCATCACATTGCATTACTGG
ATTCATCGTATTATTGCAACTCAAACCATCAATTTTTTTATTCAATCCTTCTACCTGACATGCCA
ACATAACAACTGCATCCA
Found at i:86014293 original size:120 final size:120
Alignment explanation
Indices: 86014080--86014319 Score: 471
Period size: 120 Copynumber: 2.0 Consensus size: 120
86014070 AAGGACAAAA
86014080 TCGTAAAAAGTGTAAAAGTAGGTTTCCATTAGTTAAAAAAGTCAAATGGCTATGAAACTTTAAAG
1 TCGTAAAAAGTGTAAAAGTAGGTTTCCATTAGTTAAAAAAGTCAAATGGCTATGAAACTTTAAAG
86014145 TGAATGGACTTAGATGGTAATTAGACCATTTTAATAGTTAGTGGATATTCATGGC
66 TGAATGGACTTAGATGGTAATTAGACCATTTTAATAGTTAGTGGATATTCATGGC
*
86014200 TCGTAAAAAGTTTAAAAGTAGGTTTCCATTAGTTAAAAAAGTCAAATGGCTATGAAACTTTAAAG
1 TCGTAAAAAGTGTAAAAGTAGGTTTCCATTAGTTAAAAAAGTCAAATGGCTATGAAACTTTAAAG
86014265 TGAATGGACTTAGATGGTAATTAGACCATTTTAATAGTTAGTGGATATTCATGGC
66 TGAATGGACTTAGATGGTAATTAGACCATTTTAATAGTTAGTGGATATTCATGGC
86014320 AAGGTTTTAT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (120 bp):
TCGTAAAAAGTGTAAAAGTAGGTTTCCATTAGTTAAAAAAGTCAAATGGCTATGAAACTTTAAAG
TGAATGGACTTAGATGGTAATTAGACCATTTTAATAGTTAGTGGATATTCATGGC
Found at i:86018003 original size:83 final size:83
Alignment explanation
Indices: 86017864--86018054 Score: 203
Period size: 83 Copynumber: 2.3 Consensus size: 83
86017854 AATACTCGAT
* * * *
86017864 ATCTCACACACTAAGTGCCAAAGCATAGCTGAAGCTATTATAATCTCGTACACTAAGTGCCTTT-
1 ATCTCGCACACTAAGTGCCAAAGCATAGCCGAAGCTATTACAATCTCGCACACTAAGTG-CTTTA
* *
86017928 CGTAGCCGAAGCTGTCTCA
65 CATAGCCGAAGCTATCTCA
* * *
86017947 ATCTCGCACACTAAGTGCCATATA-TATAGCCGAAGCTATTCCAAT-TCGCGCACTAAGTGCTTT
1 ATCTCGCACACTAAGTGCCA-A-AGCATAGCCGAAGCTATTACAATCTCGCACACTAAGTGCTTT
* *
86018010 ATATAGCCGAAGCTATCTCG
64 ACATAGCCGAAGCTATCTCA
* *
86018030 AT-ACGCACACTAAGTG-CAAAACATA
1 ATCTCGCACACTAAGTGCCAAAGCATA
86018055 TCCGGTTCAT
Statistics
Matches: 91, Mismatches: 13, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
79 1 0.01
80 4 0.04
81 2 0.02
82 17 0.19
83 48 0.53
84 18 0.20
85 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (83 bp):
ATCTCGCACACTAAGTGCCAAAGCATAGCCGAAGCTATTACAATCTCGCACACTAAGTGCTTTAC
ATAGCCGAAGCTATCTCA
Found at i:86018024 original size:40 final size:44
Alignment explanation
Indices: 86017864--86018046 Score: 158
Period size: 40 Copynumber: 4.4 Consensus size: 44
86017854 AATACTCGAT
* * * *
86017864 ATCTCACACACTAAGTGCCA-A-AGCATAGCTGAAGCTATTAT-A
1 ATCTCGCACACTAAGTGCCATATA-TATAGCCGAAGCTATTCTCA
* * *
86017906 ATCTCGTACACTAAGTGCC-T-T-TCGTAGCCGAAGCT-GTCTCA
1 ATCTCGCACACTAAGTGCCATATAT-ATAGCCGAAGCTATTCTCA
86017947 ATCTCGCACACTAAGTGCCATATATATAGCCGAAGCTATTC-CA
1 ATCTCGCACACTAAGTGCCATATATATAGCCGAAGCTATTCTCA
* * *
86017990 AT-TCGCGCACTAAGTG-C-TTTATATAGCCGAAGCTA-TCTCG
1 ATCTCGCACACTAAGTGCCATATATATAGCCGAAGCTATTCTCA
*
86018030 AT-ACGCACACTAAGTGC
1 ATCTCGCACACTAAGTGC
86018047 AAAACATATC
Statistics
Matches: 116, Mismatches: 15, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
39 2 0.02
40 34 0.29
41 30 0.26
42 31 0.27
43 16 0.14
44 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (44 bp):
ATCTCGCACACTAAGTGCCATATATATAGCCGAAGCTATTCTCA
Found at i:86023022 original size:13 final size:15
Alignment explanation
Indices: 86023004--86023035 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
86022994 TTAACTTATC
86023004 AATCTCTT-CCTC-G
1 AATCTCTTACCTCTG
86023017 AATCTCTTACCTCTG
1 AATCTCTTACCTCTG
86023032 AATC
1 AATC
86023036 AACCTTTCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 4 0.24
15 5 0.29
ACGTcount: A:0.22, C:0.34, G:0.06, T:0.38
Consensus pattern (15 bp):
AATCTCTTACCTCTG
Found at i:86025656 original size:40 final size:41
Alignment explanation
Indices: 86025572--86025666 Score: 113
Period size: 40 Copynumber: 2.3 Consensus size: 41
86025562 CTCAGTCTCA
*
86025572 CACATTAAGTGTCATATATATAGCCGAAGCTATTCCAATTCG
1 CACATTAAGTG-CATATATATAGCCGAAGCTATTCCAATACG
* * *
86025614 CACATTAAGTGC-TTTATATAGTCGAAGCTA-TCTCGATACG
1 CACATTAAGTGCATATATATAGCCGAAGCTATTC-CAATACG
*
86025654 CACACTAAGTGCA
1 CACATTAAGTGCA
86025667 AAACATATCT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
39 2 0.04
40 32 0.70
41 1 0.02
42 11 0.24
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (41 bp):
CACATTAAGTGCATATATATAGCCGAAGCTATTCCAATACG
Found at i:86037066 original size:20 final size:20
Alignment explanation
Indices: 86037041--86037078 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
86037031 TATTTGAAAC
86037041 TGAAATATAACATCAAATGA
1 TGAAATATAACATCAAATGA
86037061 TGAAATATAACATCAAAT
1 TGAAATATAACATCAAAT
86037079 AAAATTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (20 bp):
TGAAATATAACATCAAATGA
Found at i:86041068 original size:29 final size:28
Alignment explanation
Indices: 86041036--86041101 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
86041026 AATCATAAAT
86041036 AAAAATTAGAAAAAGAG-TTTATAAAAAGA
1 AAAAATTAGAAAAAGAGATTT-TAAAAA-A
** *
86041065 AAAAAAAAGAAAAAGAGATTTTCAAAAA
1 AAAAATTAGAAAAAGAGATTTTAAAAAA
86041093 AAAAATTAG
1 AAAAATTAG
86041102 TAGACCCACT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 8 0.26
29 20 0.65
30 3 0.10
ACGTcount: A:0.68, C:0.02, G:0.12, T:0.18
Consensus pattern (28 bp):
AAAAATTAGAAAAAGAGATTTTAAAAAA
Found at i:86045920 original size:18 final size:18
Alignment explanation
Indices: 86045885--86045933 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
86045875 TATTAATCAA
* *
86045885 AATTTTTTTATGTATTTT
1 AATTTTTATATTTATTTT
*
86045903 AATTTTTATATTTTTTTT
1 AATTTTTATATTTATTTT
*
86045921 AAATTTTA-ATTTA
1 AATTTTTATATTTA
86045934 AATGGGTGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (18 bp):
AATTTTTATATTTATTTT
Found at i:86046509 original size:10 final size:10
Alignment explanation
Indices: 86046494--86046523 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
86046484 TCGGCTGTGG
*
86046494 GCTGTGCTTT
1 GCTGTGCCTT
86046504 GCTGTGCCTT
1 GCTGTGCCTT
86046514 GCTGTGCCTT
1 GCTGTGCCTT
86046524 ATCTCCTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.27, G:0.30, T:0.43
Consensus pattern (10 bp):
GCTGTGCCTT
Found at i:86053125 original size:31 final size:30
Alignment explanation
Indices: 86053086--86053159 Score: 114
Period size: 31 Copynumber: 2.5 Consensus size: 30
86053076 AATAGAACAA
86053086 AAGAAAAAAAAGCTTGTTTAACAAAACGAG
1 AAGAAAAAAAAGCTTGTTTAACAAAACGAG
* *
86053116 ATAGAAAAAAGAGTTTGTTTAACAAAACGAG
1 A-AGAAAAAAAAGCTTGTTTAACAAAACGAG
86053147 AA-AAAAAAAAGCT
1 AAGAAAAAAAAGCT
86053160 GTTAGAAATC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
29 9 0.23
30 2 0.05
31 28 0.72
ACGTcount: A:0.58, C:0.08, G:0.16, T:0.18
Consensus pattern (30 bp):
AAGAAAAAAAAGCTTGTTTAACAAAACGAG
Found at i:86053148 original size:27 final size:29
Alignment explanation
Indices: 86053070--86053159 Score: 101
Period size: 31 Copynumber: 3.0 Consensus size: 29
86053060 ACAATTTCTA
* * *
86053070 TTGTTTAATAGAACAAAAGAAAAAAAAGC
1 TTGTTTAACAAAACAGAAGAAAAAAAAGC
* *
86053099 TTGTTTAACAAAACGAGATAGAAAAAAGAGT
1 TTGTTTAACAAAAC-AGA-AGAAAAAAAAGC
86053130 TTGTTTAACAAAACGAGAA-AAAAAAAAGC
1 TTGTTTAACAAAAC-AGAAGAAAAAAAAGC
86053159 T
1 T
86053160 GTTAGAAATC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
29 21 0.40
30 3 0.06
31 28 0.54
ACGTcount: A:0.56, C:0.08, G:0.16, T:0.21
Consensus pattern (29 bp):
TTGTTTAACAAAACAGAAGAAAAAAAAGC
Found at i:86057617 original size:32 final size:32
Alignment explanation
Indices: 86057581--86057641 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
86057571 AGATTAATAT
86057581 ATTGTCTATCAAGTCCAATTGGGAATATGTTC
1 ATTGTCTATCAAGTCCAATTGGGAATATGTTC
86057613 ATTGTCTATCAAGTCCAATTGGGAATATG
1 ATTGTCTATCAAGTCCAATTGGGAATATG
86057642 CTTTGTCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.36
Consensus pattern (32 bp):
ATTGTCTATCAAGTCCAATTGGGAATATGTTC
Found at i:86063193 original size:21 final size:21
Alignment explanation
Indices: 86063168--86063209 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
86063158 AAGTATATTT
*
86063168 AAAGTTTTCTTCGAGTTACAC
1 AAAGTTTACTTCGAGTTACAC
86063189 AAAGTTTACTTCGAGTTACAC
1 AAAGTTTACTTCGAGTTACAC
86063210 GAACTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (21 bp):
AAAGTTTACTTCGAGTTACAC
Found at i:86065705 original size:47 final size:47
Alignment explanation
Indices: 86065636--86065858 Score: 192
Period size: 47 Copynumber: 4.8 Consensus size: 47
86065626 GTCGAATGCT
* *
86065636 GATGCTATGTCTCAGACATGGTCTTACACTGGCTCATATCTCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTC
* * * **
86065683 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCT-TGTAG-C
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTC
* * * * ** *
86065728 TAAT-ACATGTCCTA-AGCAT-GTCTTACACTGGCTTACGTCTCGAAGCC
1 -GATGCCATGTCCCAGA-CATGGTCTTACACTGGCTCATATCTC-AAGTC
* *
86065775 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAA-GTC
*
86065821 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCATA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATA
86065859 ATAACCCATA
Statistics
Matches: 138, Mismatches: 26, Indels: 23
0.74 0.14 0.12
Matches are distributed among these distances:
44 15 0.11
45 15 0.11
46 44 0.32
47 49 0.36
48 14 0.10
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTC
Found at i:86065794 original size:46 final size:47
Alignment explanation
Indices: 86065627--86065854 Score: 184
Period size: 46 Copynumber: 4.9 Consensus size: 47
86065617 AAACATGGGG
* * * *
86065627 TCGAATGCTGATGCTATGTCTCAGACATGGTCTTACACTGGCTCATATC
1 TCGAA-GCCGATGC-ATGTCCCAGACATGGTCTTACACTGGCTTACATC
* *
86065676 TC-AAGTCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATC
1 TCGAAGCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTACATC
* * ** * * *
86065721 TTGTAGCTAATACATGTCCTA-AGCAT-GTCTTACACTGGCTTACGTC
1 TCGAAGCCGATGCATGTCCCAGA-CATGGTCTTACACTGGCTTACATC
* *
86065767 TCGAAGCCGATGCATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTC
1 TCGAAGCCGATGCATGTCCCAGACATGGTCTTACACTGGCT-TACATC
* *
86065813 TC-AATGTCGATGCCATGTCCTAGACATGGTCTTACACTGGCT
1 TCGAA-GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCT
86065855 CATAATAACC
Statistics
Matches: 145, Mismatches: 24, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
44 13 0.09
45 18 0.12
46 51 0.35
47 45 0.31
48 16 0.11
49 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (47 bp):
TCGAAGCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATC
Found at i:86081183 original size:42 final size:42
Alignment explanation
Indices: 86081136--86081222 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
86081126 ACTAAAAAGA
86081136 ACATACATTAAAACCATCATAATCTATCTCTAAAACTTTAAC
1 ACATACATTAAAACCATCATAATCTATCTCTAAAACTTTAAC
*
86081178 ACATACATTAAAACTATCATAATCTATCTCTAAAACTTTAAC
1 ACATACATTAAAACCATCATAATCTATCTCTAAAACTTTAAC
86081220 ACA
1 ACA
86081223 AATACAATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (42 bp):
ACATACATTAAAACCATCATAATCTATCTCTAAAACTTTAAC
Found at i:86081214 original size:22 final size:22
Alignment explanation
Indices: 86081144--86081214 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
86081134 GAACATACAT
*
86081144 TAAAACCATCATAATCTATCTC
1 TAAAACTATCATAATCTATCTC
*
86081166 TAAAACT-T--TAA-CACATACAT-
1 TAAAACTATCATAATC-TAT-C-TC
86081186 TAAAACTATCATAATCTATCTC
1 TAAAACTATCATAATCTATCTC
86081208 TAAAACT
1 TAAAACT
86081215 TTAACACAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 16
0.67 0.05 0.28
Matches are distributed among these distances:
18 1 0.03
19 5 0.13
20 8 0.21
21 4 0.11
22 14 0.37
23 5 0.13
24 1 0.03
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAACTATCATAATCTATCTC
Found at i:86081276 original size:19 final size:19
Alignment explanation
Indices: 86081254--86081295 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
86081244 AATATAATCT
*
86081254 TAAATATTAAATCTAAAA-A
1 TAAATAATAAAT-TAAAATA
86081273 TAAATAATAAATTAAAATA
1 TAAATAATAAATTAAAATA
86081292 TAAA
1 TAAA
86081296 CATACATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAATAATAAATTAAAATA
Found at i:86095232 original size:12 final size:12
Alignment explanation
Indices: 86095215--86095245 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
86095205 ACTGACTTGG
86095215 CCACACGGCCGA
1 CCACACGGCCGA
86095227 CCACACGGCCGA
1 CCACACGGCCGA
86095239 CCACACG
1 CCACACG
86095246 CCTGTGTGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.52, G:0.23, T:0.00
Consensus pattern (12 bp):
CCACACGGCCGA
Found at i:86095611 original size:22 final size:26
Alignment explanation
Indices: 86095573--86095634 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 26
86095563 ATCTCAATTC
*
86095573 ATCAATCAATTCATACCAAAAC-T-TA
1 ATCAAT-AAATCATACCAAAACGTATA
*
86095598 A-CAA-AAATCATACCTAAACGTATA
1 ATCAATAAATCATACCAAAACGTATA
86095622 ATCAATAAATCAT
1 ATCAATAAATCAT
86095635 GTAATCTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 13 0.42
23 1 0.03
24 6 0.19
25 4 0.13
26 7 0.23
ACGTcount: A:0.52, C:0.21, G:0.02, T:0.26
Consensus pattern (26 bp):
ATCAATAAATCATACCAAAACGTATA
Found at i:86096335 original size:42 final size:43
Alignment explanation
Indices: 86096228--86096336 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 43
86096218 TAAATACAAT
* * * * *
86096228 GCCAATGTCCCAGACGTGGTCTTACATGTAATTAAACATCGAT
1 GCCAATGTCCCAGACATGGTCTTACACGAAATCAAACATCGAA
* * *
86096271 GCCACTGTCCCAGACA-GAGTCTTACACGAAATCATATA-CGAA
1 GCCAATGTCCCAGACATG-GTCTTACACGAAATCAAACATCGAA
*
86096313 GCCAATGTCCCAAACATGGTCTTA
1 GCCAATGTCCCAGACATGGTCTTA
86096337 TACGTAAAAC
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
42 24 0.44
43 30 0.56
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACACGAAATCAAACATCGAA
Found at i:86098971 original size:42 final size:42
Alignment explanation
Indices: 86098914--86099033 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 42
86098904 AGGGTTTCTG
*
86098914 AGATTACATGTAAGACCATATCTGGGATATGGCATCGATA-T
1 AGATTACATGTAAGACCATATCTGGGATATGGCATAGATACT
* * * *
86098955 GAGACTT-CGTGTAAGACCATAGCTAGGCTATTGGCATAGATACT
1 -AGA-TTACATGTAAGACCATATCTGGGATA-TGGCATAGATACT
86098999 AGATTACATGTAAGACCATATCTGGGATATGGCAT
1 AGATTACATGTAAGACCATATCTGGGATATGGCAT
86099034 TAGTATGGTA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
42 30 0.46
43 34 0.52
44 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (42 bp):
AGATTACATGTAAGACCATATCTGGGATATGGCATAGATACT
Found at i:86114042 original size:28 final size:28
Alignment explanation
Indices: 86114004--86114071 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
86113994 TACTCTCGCA
* *
86114004 CACTTAAGGGTTCGCACAAGTAGGGGTAG
1 CACTT-AGGGTTCACACAAGTAAGGGTAG
* *
86114033 CACTTAGGGTTCACGCAAGTAAGGGTTG
1 CACTTAGGGTTCACACAAGTAAGGGTAG
*
86114061 CACCTAGGGTT
1 CACTTAGGGTT
86114072 TGCATGTACA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 29 0.85
29 5 0.15
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (28 bp):
CACTTAGGGTTCACACAAGTAAGGGTAG
Found at i:86114232 original size:21 final size:21
Alignment explanation
Indices: 86114208--86114257 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
86114198 CATAATTTGA
*
86114208 CTCGCATGTAATATTAATAGG
1 CTCGCATATAATATTAATAGG
*
86114229 CTCGCATATGATATTAATAGG
1 CTCGCATATAATATTAATAGG
*
86114250 CTCACATA
1 CTCGCATA
86114258 ATTTGGCCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (21 bp):
CTCGCATATAATATTAATAGG
Found at i:86118166 original size:47 final size:47
Alignment explanation
Indices: 86118115--86118306 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
86118105 TTAGGATTTT
86118115 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
86118162 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
86118209 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
86118256 ATGTGGTGAATATGAACATGC--ATATGTGGTAAAGTCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
86118301 ATGTGA
1 ATGTGA
86118307 AATATATATA
Statistics
Matches: 130, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
45 23 0.18
47 107 0.82
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:86118168 original size:22 final size:22
Alignment explanation
Indices: 86118140--86118215 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
86118130 ACATGCATAT
86118140 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
86118162 ATGTGATAAATGTG-AGCAT-GCATA
1 ATGTGAT-AA-G-GCCGAATGGC-CA
86118186 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
86118209 ATGTGAT
1 ATGTGAT
86118216 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:86118407 original size:50 final size:50
Alignment explanation
Indices: 86118265--86118397 Score: 223
Period size: 50 Copynumber: 2.7 Consensus size: 50
86118255 AATGTGGTGA
* *
86118265 ATATGA-ACATGCATATGTGGTAAAGTCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
*
86118314 ATATGAGATATGCATATGTGGTAAAGCCGACTGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
*
86118364 ATATGAGATATGTATATGTGGTAAAGCCGAATGG
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGG
86118398 CTAGTGTGAA
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 6 0.08
50 72 0.92
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (50 bp):
ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
Found at i:86118669 original size:37 final size:37
Alignment explanation
Indices: 86118565--86118669 Score: 165
Period size: 37 Copynumber: 2.8 Consensus size: 37
86118555 ATATATTCCA
* *
86118565 GGTAAGACCCAATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
*
86118602 GGTAAGATCCGATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
* *
86118639 GGTAAGACCCGATAACTTCGTGTGGAGATTT
1 GGTAAGACCCGATGACTACGTGTGGAGATTT
86118670 CGTCTAAGCT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
Found at i:86121165 original size:22 final size:22
Alignment explanation
Indices: 86121113--86121166 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
86121103 ACTGCCATGG
*
86121113 ATGTATTATGCCAATATAATTGA
1 ATGT-TTATGCCAATATAATCGA
* * * *
86121136 TTGATTATGCCAGTATGATCGA
1 ATGTTTATGCCAATATAATCGA
86121158 ATGTTTATG
1 ATGTTTATG
86121167 TGTTAAAAGA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (22 bp):
ATGTTTATGCCAATATAATCGA
Found at i:86126303 original size:48 final size:49
Alignment explanation
Indices: 86126248--86126472 Score: 230
Period size: 48 Copynumber: 4.7 Consensus size: 49
86126238 TATGTGTGCT
86126248 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATAT-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATATGTATGAGAGCC
* * * * *
86126296 AGTGTAAGATCATGTTTGGAACATGACATC-AGCA-ATGTAATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATATGT-ATGAGAGCC
* * * * *
86126344 AGTGTAAGACCATGTCTAGGACATGGCATCTA-CAT-TGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATATG-TATGAGAGCC
* * * *
86126392 AGTGTAAGACCATGTCTGGGACATGGCATCGGCC-T-CGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATATG-TATGAGAGCC
* *
86126440 AGTGTAAGACCATGTTTGGAACATGGCATCGAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC
86126473 AATTCACCCA
Statistics
Matches: 148, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
46 2 0.01
47 4 0.03
48 139 0.94
49 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCATATGTATGAGAGCC
Found at i:86126359 original size:96 final size:96
Alignment explanation
Indices: 86126248--86126472 Score: 260
Period size: 96 Copynumber: 2.3 Consensus size: 96
86126238 TATGTGTGCT
* *
86126248 AGTGTAAGACCATGTCTGGGACATGGCATCGACCA-TATTATGAGAGCCAGTGTAAGATCATGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATTA-TATGAGAGCCAGTGTAAGACCATGTC
86126312 TGGAACATGACATCAGCAAT-GTA-ATGAGAGCC
65 TGGAACATGACATCAGC-ATCG-ACATGAGAGCC
* * * * *
86126344 AGTGTAAGACCATGTCTAGGACATGGCATCTA-CATTGATATGTGCGCTAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATT-ATATGAGAGCCAGTGTAAGACCATGTC
* * * * *
86126408 TGGGACATGGCATCGGCCTCGACATGTGAGCC
65 TGGAACATGACATCAGCATCGACATGAGAGCC
* *
86126440 AGTGTAAGACCATGTTTGGAACATGGCATCGAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC
86126473 AATTCACCCA
Statistics
Matches: 108, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
95 4 0.04
96 103 0.95
97 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCATTATATGAGAGCCAGTGTAAGACCATGTCT
GGAACATGACATCAGCATCGACATGAGAGCC
Found at i:86129933 original size:42 final size:43
Alignment explanation
Indices: 86129824--86129972 Score: 103
Period size: 42 Copynumber: 3.5 Consensus size: 43
86129814 AGATCCCAGA
** *
86129824 TATGGTCTTACATGGGAGCACATATCGATGCCGATAGGCCAAC
1 TATGGTCTTACATGAAATCACATATCGATGCCGATAGGCCAAC
* ** * * *
86129867 TATGGTCTTACACGATGTCTCATATCGATGCC-AT-GTCTTAGAC
1 TATGGTCTTACATGAAATCACATATCGATGCCGATAGGC-CA-AC
* * **
86129910 -ATGGTCTTACATGAAATCACATATCAATTCC-ATACCCCAGA-
1 TATGGTCTTACATGAAATCACATATCGATGCCGATAGGCCA-AC
86129951 TATGGTCTTACACT-AAATCACA
1 TATGGTCTTACA-TGAAATCACA
86129973 CATAACCCTA
Statistics
Matches: 84, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
41 2 0.02
42 52 0.62
43 30 0.36
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (43 bp):
TATGGTCTTACATGAAATCACATATCGATGCCGATAGGCCAAC
Found at i:86131196 original size:42 final size:42
Alignment explanation
Indices: 86131136--86131249 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 42
86131126 GGCTGTTACA
* * * *
86131136 AAGACCATATCTGAGATATGGCTTC-AGTATGAGACTAT-GTGT
1 AAGACCATATCTGGGATATGGCATCGA-TATAAGACT-TCGTGC
86131178 AAGACCATATCTGGGATATGGCATCGATATAAGACTTCGTGC
1 AAGACCATATCTGGGATATGGCATCGATATAAGACTTCGTGC
* * *
86131220 AAGACCATACCTGGGCTATTGGCAACGATA
1 AAGACCATATCTGGGATA-TGGCATCGATA
86131250 CGAGATTACA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.02
42 50 0.81
43 11 0.18
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (42 bp):
AAGACCATATCTGGGATATGGCATCGATATAAGACTTCGTGC
Found at i:86131267 original size:43 final size:42
Alignment explanation
Indices: 86131175--86131285 Score: 98
Period size: 43 Copynumber: 2.6 Consensus size: 42
86131165 TGAGACTATG
* * * *
86131175 TGTAAGACCATATCTGGGATATGGCATCGATATAAGACTTCG
1 TGTAAGACCATACCTGGGATATGGCAACGATACAAGACTTCA
* * *
86131217 TGCAAGACCATACCTGGGCTATTGGCAACGATACGAGA-TTACA
1 TGTAAGACCATACCTGGGATA-TGGCAACGATACAAGACTT-CA
* ** *
86131260 TGTAAGACTATATTTGAGATATGGCA
1 TGTAAGACCATACCTGGGATATGGCA
86131286 TTGGTACGGT
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
42 25 0.46
43 29 0.54
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATACCTGGGATATGGCAACGATACAAGACTTCA
Found at i:86138740 original size:42 final size:43
Alignment explanation
Indices: 86138680--86138841 Score: 168
Period size: 42 Copynumber: 3.8 Consensus size: 43
86138670 ATTAGGGTTA
*
86138680 ATGAGACTACGTGTAAGACCATATCTAGGATATGGA-ATCAAT
1 ATGAGACTACGTGTAAGACCATATCTAGGATATGGACATCGAT
* * *
86138722 ATGAGACTACGTGGAAGACCATATTTGGGATAT-GACATCGAT
1 ATGAGACTACGTGTAAGACCATATCTAGGATATGGACATCGAT
* * * * * * *
86138764 ATAAGGCTTCGTATAAGACCATAGCT-GAGCTATTGACATCGAT
1 ATGAGACTACGTGTAAGACCATATCTAG-GATATGGACATCGAT
* * *
86138807 ACGAGATTACATGTAAGACCATATCTAGGATATGG
1 ATGAGACTACGTGTAAGACCATATCTAGGATATGG
86138842 CATTGGTACG
Statistics
Matches: 94, Mismatches: 22, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
41 3 0.03
42 58 0.62
43 32 0.34
44 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (43 bp):
ATGAGACTACGTGTAAGACCATATCTAGGATATGGACATCGAT
Found at i:86147354 original size:21 final size:21
Alignment explanation
Indices: 86147330--86147375 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
86147320 TCACACGTGT
86147330 GTGTGCCACCTCCACATAGGC
1 GTGTGCCACCTCCACATAGGC
** * *
86147351 GTGTGTGACCTCCATATGGGC
1 GTGTGCCACCTCCACATAGGC
86147372 GTGT
1 GTGT
86147376 AGACCCCTAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.15, C:0.28, G:0.30, T:0.26
Consensus pattern (21 bp):
GTGTGCCACCTCCACATAGGC
Found at i:86153187 original size:43 final size:43
Alignment explanation
Indices: 86153140--86153296 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 43
86153130 TATCCCAAAT
* *
86153140 ATGGTCTTACATGTTATCTCATATCGATGCTAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCATATCGATGCTAATGTCCCAGAC
* ** *
86153183 ATGGTCTTACACGGAATCAT-ATAAT-GATG-TCAATGTCATAAAC
1 ATGGTCTTACACGTAATC-TCAT-ATCGATGCT-AATGTCCCAGAC
* * * * *
86153226 ATGGTCTTACACGTAATCACAGT-GCAATGCCAATGTCCCAGAT
1 ATGGTCTTACACGTAATCTCA-TATCGATGCTAATGTCCCAGAC
* *
86153269 ATGGTCTTACATGTAATCTCATCTCGAT
1 ATGGTCTTACACGTAATCTCATATCGAT
86153297 AATCCTAATG
Statistics
Matches: 87, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
42 2 0.02
43 81 0.93
44 4 0.05
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCATATCGATGCTAATGTCCCAGAC
Found at i:86158555 original size:27 final size:27
Alignment explanation
Indices: 86158412--86158551 Score: 217
Period size: 27 Copynumber: 5.2 Consensus size: 27
86158402 TACTGAAATG
** *
86158412 CCCTCGATTTGTAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
86158439 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
86158466 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
86158493 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
86158520 CCCTCAATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
86158547 CCCTC
1 CCCTC
86158552 AATTGTGAAA
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:86158602 original size:27 final size:27
Alignment explanation
Indices: 86158554--86158764 Score: 221
Period size: 27 Copynumber: 7.8 Consensus size: 27
86158544 TTACCCTCAA
* **
86158554 TTGTGAAATTACTGAAATACCCCT-GT
1 TTGTAAAATTACCAAAATACCCCTAGT
* * *
86158580 ATGATAGAATTACCAAAAAACCCCTAGT
1 TTG-TAAAATTACCAAAATACCCCTAGT
*
86158608 TTGTAAAATTACCAAAATACCCTTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
86158635 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* * * *
86158662 TTGTAAAATTATCGAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* * *
86158689 TTGTGAAATTACCGAAATA-CCCTGAAT
1 TTGTAAAATTACCAAAATACCCCT-AGT
*
86158716 TTGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATACCCCTAGT
**
86158743 TTACAAAATTA-CAGAAATACCC
1 TTGTAAAATTACCA-AAATACCC
86158765 TTGACTTTCT
Statistics
Matches: 156, Mismatches: 24, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
26 7 0.04
27 141 0.90
28 8 0.05
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAGT
Found at i:86158752 original size:54 final size:53
Alignment explanation
Indices: 86158527--86158765 Score: 194
Period size: 54 Copynumber: 4.5 Consensus size: 53
86158517 TTACCCTCAA
* *** * **
86158527 TTTACAAAATTACCGTTTTACCCTCAA-TTGTGAAATTACTGAAATACCCCT-G
1 TTTATAAAATTACCGAAATACCCT-AATTTGTAAAATTACCAAAATACCCCTAG
* * * * * *
86158579 TATGATAGAATTACCAAAAAACCCCTAGTTTGTAAAATTACCAAAATACCCTTAG
1 T-TTATAAAATTACCGAAATA-CCCTAATTTGTAAAATTACCAAAATACCCCTAG
* * * * * * *
86158634 TTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCGAAATACCACTGG
1 TTTATAAAATTACCGAAATA-CCCTAATTTGTAAAATTACCAAAATACCCCTAG
* * *
86158688 TTTGTGAAATTACCGAAATACCCTGAATTTGTAAAATTACCAAAATACCCCTAA
1 TTTATAAAATTACCGAAATACCCT-AATTTGTAAAATTACCAAAATACCCCTAG
* *
86158742 TTTACAAAATTACAGAAATACCCT
1 TTTATAAAATTACCGAAATACCCT
86158766 TGACTTTCTA
Statistics
Matches: 148, Mismatches: 34, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
52 1 0.01
53 16 0.11
54 129 0.87
55 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (53 bp):
TTTATAAAATTACCGAAATACCCTAATTTGTAAAATTACCAAAATACCCCTAG
Found at i:86158815 original size:27 final size:27
Alignment explanation
Indices: 86158612--86158827 Score: 91
Period size: 27 Copynumber: 7.9 Consensus size: 27
86158602 CCTAGTTTGT
** * **
86158612 AAAATTACCAAAATACCCTTAGTTTGT
1 AAAATTACTGAAATACCCTTGGTTTAC
** * * **
86158639 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACTGAAATACCCTTGGTTTAC
**
86158666 AAAATTA-TCGAAATACCAC-TGGTTTGT
1 AAAATTACT-GAAATACC-CTTGGTTTAC
* * * **
86158693 GAAATTACCGAAATACCC-TGAATTTGT
1 AAAATTACTGAAATACCCTTG-GTTTAC
** * **
86158720 AAAATTACCAAAATACCCCTAATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
86158747 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
**
86158774 TAGAAATTA-TAGAAATACGATTGGTTTAC
1 -A-AAATTACT-GAAATACCCTTGGTTTAC
86158803 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
86158828 GTAGATTTAC
Statistics
Matches: 155, Mismatches: 23, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
26 3 0.02
27 124 0.80
28 11 0.07
29 17 0.11
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:86158922 original size:27 final size:27
Alignment explanation
Indices: 86158868--86158945 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 27
86158858 AAATGACTAA
* * *
86158868 AATACCCCTAATA-GGTAAAAAGATCGT
1 AATACCCCT-GTAGGGTAAAATGACCGT
*
86158895 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAATGACCGT
* *
86158922 AATACCCTTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAATGAC
86158946 GAATATGTCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Found at i:86159666 original size:20 final size:20
Alignment explanation
Indices: 86159641--86159727 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
86159631 GATATGATAT
*
86159641 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
86159661 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
86159681 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
86159701 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
86159721 ACATGAT
1 ACATGAT
86159728 GTATTCATAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:86159806 original size:26 final size:26
Alignment explanation
Indices: 86159777--86159907 Score: 162
Period size: 26 Copynumber: 5.2 Consensus size: 26
86159767 GAGAAAGTGC
*
86159777 AAAAGGGCGTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
***
86159803 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTG
86159829 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * **
86159855 AAAAGGG-TTTTGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
86159880 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
86159903 AAAAG
1 AAAAG
86159908 AGTCTAGGCC
Statistics
Matches: 90, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
23 5 0.06
24 3 0.03
25 28 0.31
26 54 0.60
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:86159853 original size:52 final size:51
Alignment explanation
Indices: 86159777--86159907 Score: 196
Period size: 52 Copynumber: 2.6 Consensus size: 51
86159767 GAGAAAGTGC
* *
86159777 AAAAGGGCGTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGG-TTATGCCCCAATTTACCA
* *
86159829 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGTTTTGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGTTATGCCCCAATTTACCA
86159880 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG
86159908 AGTCTAGGCC
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
48 5 0.07
49 5 0.07
50 8 0.11
51 25 0.33
52 32 0.43
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGTTATGCCCCAATTTACCA
Found at i:86160110 original size:42 final size:42
Alignment explanation
Indices: 86160045--86160132 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
86160035 TAGTCTCCCC
* * ** *
86160045 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATAGGCTTGCATACATCCATTGACATTACATATGATATTG
*
86160087 AAATAGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATAGGCTTGCATACATCCATTGACATTACATATGATATTG
86160129 AAAT
1 AAAT
86160133 GGGCCTATGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (42 bp):
AAATAGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:86160195 original size:31 final size:31
Alignment explanation
Indices: 86160160--86160268 Score: 182
Period size: 31 Copynumber: 3.5 Consensus size: 31
86160150 CGTTTATAGT
* *
86160160 AAAGGCTTTGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
86160191 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
86160222 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
86160253 AAAGGCTTTGGCCCAG
1 AAAGGCTTCGGCCCAG
86160269 CAACCGTTAA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Done.